Minimal intervention strategies in logical signaling networks with ASP
- Proposing relevant perturbations to biological signaling networks is central to many problems in biology and medicine because it allows for enabling or disabling certain biological outcomes. In contrast to quantitative methods that permit fine-grained (kinetic) analysis, qualitative approaches allow for addressing large-scale networks. This is accomplished by more abstract representations such as logical networks. We elaborate upon such a qualitative approach aiming at the computation of minimal interventions in logical signaling networks relying on Kleene's three-valued logic and fixpoint semantics. We address this problem within answer set programming and show that it greatly outperforms previous work using dedicated algorithms.
| Author details: | Roland KaminskiORCiD, Torsten H. SchaubORCiDGND, Anne SiegelORCiDGND, Santiago Videla |
|---|---|
| DOI: | https://doi.org/10.1017/S1471068413000422 |
| ISSN: | 1471-0684 |
| Title of parent work (English): | Theory and practice of logic programming |
| Publisher: | Cambridge Univ. Press |
| Place of publishing: | New York |
| Publication type: | Article |
| Language: | English |
| Year of first publication: | 2013 |
| Publication year: | 2013 |
| Release date: | 2017/03/26 |
| Volume: | 13 |
| Number of pages: | 16 |
| First page: | 675 |
| Last Page: | 690 |
| Funding institution: | DFG grant [SCHA 550/9-1]; [ANR-10-BLANC-0218] |
| Organizational units: | Mathematisch-Naturwissenschaftliche Fakultät / Institut für Informatik und Computational Science |
| Peer review: | Referiert |
| Institution name at the time of the publication: | Mathematisch-Naturwissenschaftliche Fakultät / Institut für Informatik |
| External remark: | Zweitveröffentlichung in der Schriftenreihe Postprints der Universität Potsdam : Mathematisch-Naturwissenschaftliche Reihe ; 596 |
